Locus 8917

Sequence ID 3R_DroMel_CAF1
Location 23,928,782 – 23,928,880
Length 98
Max. P 0.761422
window14303

overview

Window 3

Location 23,928,782 – 23,928,880
Length 98
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 79.42
Mean single sequence MFE -23.68
Consensus MFE -12.03
Energy contribution -13.20
Covariance contribution 1.17
Combinations/Pair 1.00
Mean z-score -2.28
Structure conservation index 0.51
SVM decision value 0.50
SVM RNA-class probability 0.761422
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23928782 98 - 27905053
CAAAAGAGCCCAAAAAGA--AGAUGCAAAAAGGAAAAUUCGGAAAAAUUU---------------CUGGGUGAAAACAUCUAGAAAAUUGCGCAAUUUCCUGCGCCUGCAGAUAC
..................--...((((....................(((---------------(((((((....))))))))))...(((((......))))).))))..... ( -21.70)
>DroPse_CAF1 140882 105 - 1
CAAAGG---CGAAAAU------GUGCC-AAAGGAAAAUUCACAAAAAUUUUGAUUCCACUUUGUGCGGUGUGAAAACAUCUAGAAAAUUGCGCAAUUUCCUGCGCCUGCAGAUAG
....((---((.....------.))))-...((((...(((.........))))))).((.(.((((((((....))))).........(((((......)))))..))).).)) ( -24.80)
>DroSim_CAF1 131697 98 - 1
CAAAAGAGCCGAAAAAGG--AGGUGCAAAAAGGAAAAUUCGGAAAAAUUU---------------CUGGGUGAAAACAUCUAGAAAAUUGCGCAAUUUCCUGCGCCUGCAGAUAC
................(.--(((((((....(((((...((.((...(((---------------(((((((....)))))))))).)).))...)))))))))))).)...... ( -28.50)
>DroEre_CAF1 135910 100 - 1
CAAAGGAGCCGAAAAAAGAGAGAUGCUAAAAGGAAAAUUCGGAAAAAUUU---------------CUGGGUGAAAACAGCUAGAAAAUUGCGCAAUUUCCUGCGCCUGCAGAUAC
....(.(((((((........................))))).....(((---------------((((.((....)).)))))))...(((((......))))))).)...... ( -19.66)
>DroAna_CAF1 138616 89 - 1
CAAAAGCGC---AAAA--------GCCAAAAGAAGAAUUCGGAAAAAUUU---------------CUGGGUGAAAACAUCUAGAAAAUUGCGCAAUUUCCUGCGCCUGCAGAUAG
.....((((---((..--------.((.............)).....(((---------------(((((((....)))))))))).))))))......((((....)))).... ( -24.42)
>DroPer_CAF1 141271 105 - 1
CAAAGG---CGAAAAU------GUGCC-AAAGGAAAAUUCACAAAAAUUUUGAUUCCAGUUUGUGCGGUGUGAAAACAACUAGAAAAUUGCGCAAUUUCCUGCGCCUGCAGAUAG
((((((---((.....------.))))-...((((...(((.........)))))))..))))((((((((....)))...........(((((......))))))))))..... ( -23.00)
>consensus
CAAAAGAGCCGAAAAA______GUGCCAAAAGGAAAAUUCGGAAAAAUUU_______________CUGGGUGAAAACAUCUAGAAAAUUGCGCAAUUUCCUGCGCCUGCAGAUAC
.......................(((.......................................(((((((....)))))))......(((((......)))))..)))..... (-12.03 = -13.20 +   1.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:22:42 2006